swifco_rs.observers.asf module¶

swifco_rs.observers.asf.epi_stat_table()¶

Time series of total population and population per SIR class.

Columns are [Total, Susceptible, Infected, Resistant]

swifco_rs.observers.asf.first_infection_map()¶: Grid storing the tick when an infected animal was present for the first time

swifco_rs.observers.asf.first_new_infection_map()¶: Grid storing the tick when an animal was first infected in each cell

swifco_rs.observers.asf.infectious_carcasses_list()¶: List of depositions of infectious carcasses

swifco_rs.observers.asf.infectious_carcasses_sample(size=1)¶

Samples from the infectious carcasses present in the landscape

Parameters:

size - size of the sample generated each tick

swifco_rs.observers.asf.new_infections_map()¶

Map of new infections including their origin

Layers are [Total, Within, Between, Carcass]

swifco_rs.observers.asf.new_infections_table()¶

Time series of new infections including their origin.

Columns are [Total, Within, Between, Carcass]

swifco_rs.observers.asf.secondary_infections()¶

Histograms over the number of secondary infections

Columns represent number of secondary infections. Rows capture “total”, “within”, “between” and “carcass”.

swifco_rs.observers.asf.spread_movement_list()¶

List of locations from where the infection first reached a cell

Columns are [“t”, “x”, “y”, “inf_loc_x”, “inf_loc_y”, “inf_origin_loc_x”, “inf_origin_loc_y”].

swifco_rs.observers.asf.spread_velocity_map(resolution=1)¶: Grid storing the local velocity by comparing when infected animals were first present in neighbouring cells

swifco_rs.observers.asf.variants_list()¶

Lists all created ASF variants including their origin

Columns are [“x”, “y”, “tick”, “variant”, “origin”].

swifco_rs.observers.asf.variants_map(first_variant=False)¶

Grid with a number for each virus variant present in infectious hosts

Parameters:

first_variant - whether to record only the first occurring variant, instead of a current one

swifco-rs